Multiple sequence alignment - TraesCS3D01G287200

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3D01G287200 chr3D 100.000 3724 0 0 1 3724 395857428 395861151 0.000000e+00 6878
1 TraesCS3D01G287200 chr3D 95.796 3092 113 13 643 3724 323150771 323153855 0.000000e+00 4974
2 TraesCS3D01G287200 chr3D 93.117 494 27 6 238 727 428367511 428368001 0.000000e+00 717
3 TraesCS3D01G287200 chr3D 89.754 244 22 2 1 243 132370918 132370677 3.610000e-80 309
4 TraesCS3D01G287200 chr2D 95.653 3497 138 12 237 3724 412327176 412330667 0.000000e+00 5603
5 TraesCS3D01G287200 chr4D 95.047 3089 110 14 643 3724 144582978 144579926 0.000000e+00 4817
6 TraesCS3D01G287200 chr4D 90.947 243 20 2 1 242 96353880 96354121 3.590000e-85 326
7 TraesCS3D01G287200 chr7A 94.853 2681 132 6 643 3319 265354572 265357250 0.000000e+00 4181
8 TraesCS3D01G287200 chr7A 89.913 1943 133 31 1794 3721 231310560 231312454 0.000000e+00 2444
9 TraesCS3D01G287200 chr7A 89.924 1717 137 17 238 1927 315499587 315497880 0.000000e+00 2180
10 TraesCS3D01G287200 chr7A 88.668 653 59 11 237 878 370644024 370643376 0.000000e+00 782
11 TraesCS3D01G287200 chr1D 95.842 2381 95 4 643 3020 371715427 371717806 0.000000e+00 3845
12 TraesCS3D01G287200 chr1D 94.027 1808 94 12 1926 3724 238007686 238009488 0.000000e+00 2728
13 TraesCS3D01G287200 chr1D 95.325 492 21 2 238 727 371714933 371715424 0.000000e+00 780
14 TraesCS3D01G287200 chr1D 92.727 495 28 7 238 727 238006176 238006667 0.000000e+00 708
15 TraesCS3D01G287200 chr1D 88.571 245 22 5 1 242 337061260 337061501 3.640000e-75 292
16 TraesCS3D01G287200 chr5D 96.226 1802 56 6 1926 3724 190783507 190781715 0.000000e+00 2940
17 TraesCS3D01G287200 chr5D 94.460 1805 91 6 1926 3724 419887493 419889294 0.000000e+00 2771
18 TraesCS3D01G287200 chr5D 96.220 1693 61 3 238 1927 190784909 190783217 0.000000e+00 2769
19 TraesCS3D01G287200 chr5D 92.231 502 29 8 234 728 419885977 419886475 0.000000e+00 702
20 TraesCS3D01G287200 chr5D 90.123 243 21 2 1 242 155176038 155175798 2.790000e-81 313
21 TraesCS3D01G287200 chr5D 89.300 243 22 3 1 241 523114393 523114153 6.040000e-78 302
22 TraesCS3D01G287200 chr5D 89.300 243 22 3 1 241 523254896 523254656 6.040000e-78 302
23 TraesCS3D01G287200 chr6D 93.961 1805 95 8 1926 3724 186935204 186933408 0.000000e+00 2717
24 TraesCS3D01G287200 chr6D 90.123 243 21 2 1 242 454951393 454951153 2.790000e-81 313
25 TraesCS3D01G287200 chr6D 88.571 245 22 5 1 242 317816004 317816245 3.640000e-75 292
26 TraesCS3D01G287200 chr3A 90.251 1713 134 14 238 1927 217246937 217245235 0.000000e+00 2207
27 TraesCS3D01G287200 chr6A 89.721 1722 145 16 234 1927 446425267 446426984 0.000000e+00 2170
28 TraesCS3D01G287200 chr5A 89.340 591 52 9 238 819 133806414 133807002 0.000000e+00 732
29 TraesCS3D01G287200 chr4A 89.328 253 22 3 1 249 455423091 455422840 2.790000e-81 313


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3D01G287200 chr3D 395857428 395861151 3723 False 6878.0 6878 100.0000 1 3724 1 chr3D.!!$F2 3723
1 TraesCS3D01G287200 chr3D 323150771 323153855 3084 False 4974.0 4974 95.7960 643 3724 1 chr3D.!!$F1 3081
2 TraesCS3D01G287200 chr2D 412327176 412330667 3491 False 5603.0 5603 95.6530 237 3724 1 chr2D.!!$F1 3487
3 TraesCS3D01G287200 chr4D 144579926 144582978 3052 True 4817.0 4817 95.0470 643 3724 1 chr4D.!!$R1 3081
4 TraesCS3D01G287200 chr7A 265354572 265357250 2678 False 4181.0 4181 94.8530 643 3319 1 chr7A.!!$F2 2676
5 TraesCS3D01G287200 chr7A 231310560 231312454 1894 False 2444.0 2444 89.9130 1794 3721 1 chr7A.!!$F1 1927
6 TraesCS3D01G287200 chr7A 315497880 315499587 1707 True 2180.0 2180 89.9240 238 1927 1 chr7A.!!$R1 1689
7 TraesCS3D01G287200 chr7A 370643376 370644024 648 True 782.0 782 88.6680 237 878 1 chr7A.!!$R2 641
8 TraesCS3D01G287200 chr1D 371714933 371717806 2873 False 2312.5 3845 95.5835 238 3020 2 chr1D.!!$F3 2782
9 TraesCS3D01G287200 chr1D 238006176 238009488 3312 False 1718.0 2728 93.3770 238 3724 2 chr1D.!!$F2 3486
10 TraesCS3D01G287200 chr5D 190781715 190784909 3194 True 2854.5 2940 96.2230 238 3724 2 chr5D.!!$R4 3486
11 TraesCS3D01G287200 chr5D 419885977 419889294 3317 False 1736.5 2771 93.3455 234 3724 2 chr5D.!!$F1 3490
12 TraesCS3D01G287200 chr6D 186933408 186935204 1796 True 2717.0 2717 93.9610 1926 3724 1 chr6D.!!$R1 1798
13 TraesCS3D01G287200 chr3A 217245235 217246937 1702 True 2207.0 2207 90.2510 238 1927 1 chr3A.!!$R1 1689
14 TraesCS3D01G287200 chr6A 446425267 446426984 1717 False 2170.0 2170 89.7210 234 1927 1 chr6A.!!$F1 1693
15 TraesCS3D01G287200 chr5A 133806414 133807002 588 False 732.0 732 89.3400 238 819 1 chr5A.!!$F1 581

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
69 70 0.034896 AACTGTAGGGTGGAGTTGCG 59.965 55.000 0.0 0.0 0.0 4.85 F
230 231 0.038159 CCTCTCCCACTGTCGTTCAC 60.038 60.000 0.0 0.0 0.0 3.18 F
231 232 0.038159 CTCTCCCACTGTCGTTCACC 60.038 60.000 0.0 0.0 0.0 4.02 F
235 236 0.105964 CCCACTGTCGTTCACCTTCA 59.894 55.000 0.0 0.0 0.0 3.02 F
1275 1609 0.181350 GCGAAGATGAACCTCCCCAT 59.819 55.000 0.0 0.0 0.0 4.00 F
2377 3302 1.003972 TGAAAGCGACAAACAGAAGCG 60.004 47.619 0.0 0.0 0.0 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1303 1637 0.679505 TACACCAAGCAGAGCTCGTT 59.320 50.000 8.37 0.32 38.25 3.85 R
1512 1849 6.516693 CGAATAGTAATCCAGTGCATCAGGTA 60.517 42.308 0.00 0.00 0.00 3.08 R
1594 1932 9.905713 AGTACATAAACTACACAATTGGATCAT 57.094 29.630 10.83 0.00 0.00 2.45 R
2377 3302 1.202722 TCTCCAAACCGGACAACTTCC 60.203 52.381 9.46 0.00 39.64 3.46 R
2473 3398 0.745845 GACGCTGGCTCCAACATCAT 60.746 55.000 0.00 0.00 0.00 2.45 R
3207 4139 6.294361 AGTGACCAATATAAGTGTGTGCTA 57.706 37.500 0.00 0.00 0.00 3.49 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.762529 TTGGTGCATGGCTGGCTA 59.237 55.556 2.00 0.00 0.00 3.93
18 19 1.378911 TTGGTGCATGGCTGGCTAG 60.379 57.895 2.00 0.00 0.00 3.42
19 20 1.851065 TTGGTGCATGGCTGGCTAGA 61.851 55.000 0.00 0.00 0.00 2.43
20 21 1.150081 GGTGCATGGCTGGCTAGAT 59.850 57.895 0.00 0.00 0.00 1.98
21 22 0.466922 GGTGCATGGCTGGCTAGATT 60.467 55.000 0.00 0.00 0.00 2.40
22 23 0.950116 GTGCATGGCTGGCTAGATTC 59.050 55.000 0.00 0.00 0.00 2.52
23 24 0.547553 TGCATGGCTGGCTAGATTCA 59.452 50.000 0.00 0.00 0.00 2.57
24 25 1.064537 TGCATGGCTGGCTAGATTCAA 60.065 47.619 0.00 0.00 0.00 2.69
25 26 2.026641 GCATGGCTGGCTAGATTCAAA 58.973 47.619 0.00 0.00 0.00 2.69
26 27 2.034305 GCATGGCTGGCTAGATTCAAAG 59.966 50.000 0.00 0.00 0.00 2.77
27 28 3.548770 CATGGCTGGCTAGATTCAAAGA 58.451 45.455 0.00 0.00 0.00 2.52
28 29 3.272574 TGGCTGGCTAGATTCAAAGAG 57.727 47.619 0.00 0.00 0.00 2.85
29 30 2.092753 TGGCTGGCTAGATTCAAAGAGG 60.093 50.000 0.00 0.00 0.00 3.69
30 31 2.092699 GGCTGGCTAGATTCAAAGAGGT 60.093 50.000 0.00 0.00 0.00 3.85
31 32 3.615155 GCTGGCTAGATTCAAAGAGGTT 58.385 45.455 0.00 0.00 0.00 3.50
32 33 4.013050 GCTGGCTAGATTCAAAGAGGTTT 58.987 43.478 0.00 0.00 0.00 3.27
33 34 4.460731 GCTGGCTAGATTCAAAGAGGTTTT 59.539 41.667 0.00 0.00 0.00 2.43
34 35 5.620879 GCTGGCTAGATTCAAAGAGGTTTTG 60.621 44.000 0.00 0.00 0.00 2.44
35 36 4.766891 TGGCTAGATTCAAAGAGGTTTTGG 59.233 41.667 0.00 0.00 0.00 3.28
36 37 4.767409 GGCTAGATTCAAAGAGGTTTTGGT 59.233 41.667 0.00 0.00 0.00 3.67
37 38 5.106118 GGCTAGATTCAAAGAGGTTTTGGTC 60.106 44.000 0.00 0.60 0.00 4.02
38 39 5.106118 GCTAGATTCAAAGAGGTTTTGGTCC 60.106 44.000 0.00 0.00 0.00 4.46
39 40 5.066913 AGATTCAAAGAGGTTTTGGTCCT 57.933 39.130 0.00 0.00 38.09 3.85
40 41 4.829492 AGATTCAAAGAGGTTTTGGTCCTG 59.171 41.667 0.00 0.00 35.20 3.86
41 42 3.662759 TCAAAGAGGTTTTGGTCCTGT 57.337 42.857 0.00 0.00 35.20 4.00
42 43 3.976015 TCAAAGAGGTTTTGGTCCTGTT 58.024 40.909 0.00 0.00 39.68 3.16
43 44 3.699038 TCAAAGAGGTTTTGGTCCTGTTG 59.301 43.478 0.00 0.00 38.33 3.33
44 45 2.364972 AGAGGTTTTGGTCCTGTTGG 57.635 50.000 0.00 0.00 35.20 3.77
45 46 1.569072 AGAGGTTTTGGTCCTGTTGGT 59.431 47.619 0.00 0.00 35.20 3.67
46 47 2.024369 AGAGGTTTTGGTCCTGTTGGTT 60.024 45.455 0.00 0.00 35.20 3.67
47 48 2.361119 GAGGTTTTGGTCCTGTTGGTTC 59.639 50.000 0.00 0.00 35.20 3.62
48 49 2.104170 GGTTTTGGTCCTGTTGGTTCA 58.896 47.619 0.00 0.00 34.23 3.18
49 50 2.159156 GGTTTTGGTCCTGTTGGTTCAC 60.159 50.000 0.00 0.00 34.23 3.18
50 51 2.494073 GTTTTGGTCCTGTTGGTTCACA 59.506 45.455 0.00 0.00 34.23 3.58
51 52 2.516227 TTGGTCCTGTTGGTTCACAA 57.484 45.000 0.00 0.00 36.54 3.33
61 62 2.631160 TGGTTCACAACTGTAGGGTG 57.369 50.000 0.00 0.00 38.87 4.61
62 63 1.142060 TGGTTCACAACTGTAGGGTGG 59.858 52.381 7.15 0.00 36.85 4.61
63 64 1.418637 GGTTCACAACTGTAGGGTGGA 59.581 52.381 7.15 0.00 36.85 4.02
64 65 2.550208 GGTTCACAACTGTAGGGTGGAG 60.550 54.545 7.15 0.00 36.85 3.86
65 66 2.097110 TCACAACTGTAGGGTGGAGT 57.903 50.000 7.15 0.00 36.85 3.85
66 67 2.404559 TCACAACTGTAGGGTGGAGTT 58.595 47.619 7.15 0.00 36.85 3.01
68 69 1.202770 ACAACTGTAGGGTGGAGTTGC 60.203 52.381 10.29 0.00 46.99 4.17
69 70 0.034896 AACTGTAGGGTGGAGTTGCG 59.965 55.000 0.00 0.00 0.00 4.85
70 71 1.119574 ACTGTAGGGTGGAGTTGCGT 61.120 55.000 0.00 0.00 0.00 5.24
71 72 0.389948 CTGTAGGGTGGAGTTGCGTC 60.390 60.000 0.00 0.00 0.00 5.19
72 73 1.079336 GTAGGGTGGAGTTGCGTCC 60.079 63.158 0.00 0.00 37.10 4.79
73 74 1.229082 TAGGGTGGAGTTGCGTCCT 60.229 57.895 1.67 0.00 37.52 3.85
74 75 0.834687 TAGGGTGGAGTTGCGTCCTT 60.835 55.000 1.67 0.00 37.52 3.36
75 76 1.228154 GGGTGGAGTTGCGTCCTTT 60.228 57.895 1.67 0.00 37.52 3.11
76 77 1.235281 GGGTGGAGTTGCGTCCTTTC 61.235 60.000 1.67 0.00 37.52 2.62
77 78 1.235281 GGTGGAGTTGCGTCCTTTCC 61.235 60.000 1.67 0.00 37.52 3.13
78 79 0.250338 GTGGAGTTGCGTCCTTTCCT 60.250 55.000 1.67 0.00 37.52 3.36
79 80 1.001633 GTGGAGTTGCGTCCTTTCCTA 59.998 52.381 1.67 0.00 37.52 2.94
80 81 1.275291 TGGAGTTGCGTCCTTTCCTAG 59.725 52.381 1.67 0.00 37.52 3.02
81 82 1.549170 GGAGTTGCGTCCTTTCCTAGA 59.451 52.381 0.00 0.00 33.30 2.43
82 83 2.168728 GGAGTTGCGTCCTTTCCTAGAT 59.831 50.000 0.00 0.00 33.30 1.98
83 84 3.383825 GGAGTTGCGTCCTTTCCTAGATA 59.616 47.826 0.00 0.00 33.30 1.98
84 85 4.361420 GAGTTGCGTCCTTTCCTAGATAC 58.639 47.826 0.00 0.00 0.00 2.24
85 86 4.024670 AGTTGCGTCCTTTCCTAGATACT 58.975 43.478 0.00 0.00 0.00 2.12
86 87 4.466726 AGTTGCGTCCTTTCCTAGATACTT 59.533 41.667 0.00 0.00 0.00 2.24
87 88 5.655532 AGTTGCGTCCTTTCCTAGATACTTA 59.344 40.000 0.00 0.00 0.00 2.24
88 89 5.511234 TGCGTCCTTTCCTAGATACTTAC 57.489 43.478 0.00 0.00 0.00 2.34
89 90 4.951715 TGCGTCCTTTCCTAGATACTTACA 59.048 41.667 0.00 0.00 0.00 2.41
90 91 5.597182 TGCGTCCTTTCCTAGATACTTACAT 59.403 40.000 0.00 0.00 0.00 2.29
91 92 6.774170 TGCGTCCTTTCCTAGATACTTACATA 59.226 38.462 0.00 0.00 0.00 2.29
92 93 7.083230 GCGTCCTTTCCTAGATACTTACATAC 58.917 42.308 0.00 0.00 0.00 2.39
93 94 7.255381 GCGTCCTTTCCTAGATACTTACATACA 60.255 40.741 0.00 0.00 0.00 2.29
94 95 8.627403 CGTCCTTTCCTAGATACTTACATACAA 58.373 37.037 0.00 0.00 0.00 2.41
95 96 9.747293 GTCCTTTCCTAGATACTTACATACAAC 57.253 37.037 0.00 0.00 0.00 3.32
96 97 9.483489 TCCTTTCCTAGATACTTACATACAACA 57.517 33.333 0.00 0.00 0.00 3.33
117 118 9.730420 ACAACAATTGTAAACTTGCTTTAGTAG 57.270 29.630 12.39 0.00 43.27 2.57
128 129 3.726291 GCTTTAGTAGCCTCCTGAGAG 57.274 52.381 0.00 0.00 44.48 3.20
129 130 3.292460 GCTTTAGTAGCCTCCTGAGAGA 58.708 50.000 0.00 0.00 44.48 3.10
130 131 3.067601 GCTTTAGTAGCCTCCTGAGAGAC 59.932 52.174 0.00 0.00 44.48 3.36
131 132 4.532834 CTTTAGTAGCCTCCTGAGAGACT 58.467 47.826 0.00 0.00 43.39 3.24
132 133 4.594675 TTAGTAGCCTCCTGAGAGACTT 57.405 45.455 0.00 0.00 43.39 3.01
133 134 2.733956 AGTAGCCTCCTGAGAGACTTG 58.266 52.381 0.00 0.00 43.39 3.16
134 135 1.754226 GTAGCCTCCTGAGAGACTTGG 59.246 57.143 0.00 0.00 43.39 3.61
135 136 1.220477 GCCTCCTGAGAGACTTGGC 59.780 63.158 0.00 0.00 43.39 4.52
136 137 1.904032 CCTCCTGAGAGACTTGGCC 59.096 63.158 0.00 0.00 43.39 5.36
137 138 1.515020 CTCCTGAGAGACTTGGCCG 59.485 63.158 0.00 0.00 43.39 6.13
138 139 1.954362 CTCCTGAGAGACTTGGCCGG 61.954 65.000 0.00 0.00 43.39 6.13
139 140 2.581354 CTGAGAGACTTGGCCGGG 59.419 66.667 2.18 0.00 0.00 5.73
140 141 3.003173 TGAGAGACTTGGCCGGGG 61.003 66.667 2.18 0.00 0.00 5.73
141 142 3.787001 GAGAGACTTGGCCGGGGG 61.787 72.222 2.18 0.00 0.00 5.40
171 172 6.917217 AAAAACCCACATGTAACAATGTTG 57.083 33.333 9.15 0.00 38.75 3.33
172 173 5.606348 AAACCCACATGTAACAATGTTGT 57.394 34.783 9.15 0.00 44.72 3.32
173 174 6.716934 AAACCCACATGTAACAATGTTGTA 57.283 33.333 9.15 0.00 41.31 2.41
174 175 6.716934 AACCCACATGTAACAATGTTGTAA 57.283 33.333 9.15 0.00 41.31 2.41
175 176 6.079424 ACCCACATGTAACAATGTTGTAAC 57.921 37.500 9.15 0.00 41.31 2.50
176 177 5.830991 ACCCACATGTAACAATGTTGTAACT 59.169 36.000 9.15 0.00 41.31 2.24
177 178 6.148948 CCCACATGTAACAATGTTGTAACTG 58.851 40.000 9.15 2.28 41.31 3.16
178 179 6.148948 CCACATGTAACAATGTTGTAACTGG 58.851 40.000 9.15 4.49 41.31 4.00
179 180 6.238897 CCACATGTAACAATGTTGTAACTGGT 60.239 38.462 9.15 0.00 41.31 4.00
180 181 7.199766 CACATGTAACAATGTTGTAACTGGTT 58.800 34.615 9.15 0.00 41.31 3.67
181 182 7.378461 CACATGTAACAATGTTGTAACTGGTTC 59.622 37.037 9.15 0.00 41.31 3.62
182 183 7.284489 ACATGTAACAATGTTGTAACTGGTTCT 59.716 33.333 9.15 0.00 41.31 3.01
183 184 7.254227 TGTAACAATGTTGTAACTGGTTCTC 57.746 36.000 9.15 0.00 41.31 2.87
184 185 7.051623 TGTAACAATGTTGTAACTGGTTCTCT 58.948 34.615 9.15 0.00 41.31 3.10
185 186 6.377327 AACAATGTTGTAACTGGTTCTCTG 57.623 37.500 0.00 0.00 41.31 3.35
186 187 5.437060 ACAATGTTGTAACTGGTTCTCTGT 58.563 37.500 0.00 0.00 40.16 3.41
187 188 5.296780 ACAATGTTGTAACTGGTTCTCTGTG 59.703 40.000 0.00 0.00 40.16 3.66
188 189 4.746535 TGTTGTAACTGGTTCTCTGTGA 57.253 40.909 0.00 0.00 0.00 3.58
189 190 4.693283 TGTTGTAACTGGTTCTCTGTGAG 58.307 43.478 0.00 0.00 0.00 3.51
190 191 4.161565 TGTTGTAACTGGTTCTCTGTGAGT 59.838 41.667 0.00 0.00 0.00 3.41
191 192 5.361571 TGTTGTAACTGGTTCTCTGTGAGTA 59.638 40.000 0.00 0.00 0.00 2.59
192 193 6.127281 TGTTGTAACTGGTTCTCTGTGAGTAA 60.127 38.462 0.00 0.00 0.00 2.24
193 194 6.665992 TGTAACTGGTTCTCTGTGAGTAAT 57.334 37.500 0.00 0.00 0.00 1.89
194 195 7.770366 TGTAACTGGTTCTCTGTGAGTAATA 57.230 36.000 0.00 0.00 0.00 0.98
195 196 7.600065 TGTAACTGGTTCTCTGTGAGTAATAC 58.400 38.462 0.00 0.00 0.00 1.89
196 197 6.665992 AACTGGTTCTCTGTGAGTAATACA 57.334 37.500 0.00 0.00 0.00 2.29
197 198 6.665992 ACTGGTTCTCTGTGAGTAATACAA 57.334 37.500 0.00 0.00 0.00 2.41
198 199 7.062749 ACTGGTTCTCTGTGAGTAATACAAA 57.937 36.000 0.00 0.00 0.00 2.83
199 200 7.506114 ACTGGTTCTCTGTGAGTAATACAAAA 58.494 34.615 0.00 0.00 0.00 2.44
200 201 7.657761 ACTGGTTCTCTGTGAGTAATACAAAAG 59.342 37.037 0.00 0.00 0.00 2.27
201 202 7.506114 TGGTTCTCTGTGAGTAATACAAAAGT 58.494 34.615 0.00 0.00 0.00 2.66
202 203 7.656137 TGGTTCTCTGTGAGTAATACAAAAGTC 59.344 37.037 0.00 0.00 0.00 3.01
203 204 7.656137 GGTTCTCTGTGAGTAATACAAAAGTCA 59.344 37.037 0.00 0.00 0.00 3.41
204 205 8.704234 GTTCTCTGTGAGTAATACAAAAGTCAG 58.296 37.037 0.00 0.00 0.00 3.51
205 206 7.952671 TCTCTGTGAGTAATACAAAAGTCAGT 58.047 34.615 0.00 0.00 0.00 3.41
206 207 7.867909 TCTCTGTGAGTAATACAAAAGTCAGTG 59.132 37.037 0.00 0.00 0.00 3.66
207 208 6.929049 TCTGTGAGTAATACAAAAGTCAGTGG 59.071 38.462 0.00 0.00 0.00 4.00
208 209 5.995282 TGTGAGTAATACAAAAGTCAGTGGG 59.005 40.000 0.00 0.00 0.00 4.61
209 210 6.183361 TGTGAGTAATACAAAAGTCAGTGGGA 60.183 38.462 0.00 0.00 0.00 4.37
210 211 6.369065 GTGAGTAATACAAAAGTCAGTGGGAG 59.631 42.308 0.00 0.00 0.00 4.30
211 212 5.246307 AGTAATACAAAAGTCAGTGGGAGC 58.754 41.667 0.00 0.00 0.00 4.70
212 213 2.561478 TACAAAAGTCAGTGGGAGCC 57.439 50.000 0.00 0.00 0.00 4.70
213 214 0.846693 ACAAAAGTCAGTGGGAGCCT 59.153 50.000 0.00 0.00 0.00 4.58
214 215 1.202818 ACAAAAGTCAGTGGGAGCCTC 60.203 52.381 0.00 0.00 0.00 4.70
215 216 1.072965 CAAAAGTCAGTGGGAGCCTCT 59.927 52.381 0.00 0.00 0.00 3.69
216 217 0.980423 AAAGTCAGTGGGAGCCTCTC 59.020 55.000 0.00 0.00 0.00 3.20
224 225 3.304251 GGAGCCTCTCCCACTGTC 58.696 66.667 1.44 0.00 44.36 3.51
225 226 2.716017 GGAGCCTCTCCCACTGTCG 61.716 68.421 1.44 0.00 44.36 4.35
226 227 1.979693 GAGCCTCTCCCACTGTCGT 60.980 63.158 0.00 0.00 0.00 4.34
227 228 1.534235 AGCCTCTCCCACTGTCGTT 60.534 57.895 0.00 0.00 0.00 3.85
228 229 1.079750 GCCTCTCCCACTGTCGTTC 60.080 63.158 0.00 0.00 0.00 3.95
229 230 1.816863 GCCTCTCCCACTGTCGTTCA 61.817 60.000 0.00 0.00 0.00 3.18
230 231 0.038159 CCTCTCCCACTGTCGTTCAC 60.038 60.000 0.00 0.00 0.00 3.18
231 232 0.038159 CTCTCCCACTGTCGTTCACC 60.038 60.000 0.00 0.00 0.00 4.02
232 233 0.469331 TCTCCCACTGTCGTTCACCT 60.469 55.000 0.00 0.00 0.00 4.00
233 234 0.393077 CTCCCACTGTCGTTCACCTT 59.607 55.000 0.00 0.00 0.00 3.50
234 235 0.391597 TCCCACTGTCGTTCACCTTC 59.608 55.000 0.00 0.00 0.00 3.46
235 236 0.105964 CCCACTGTCGTTCACCTTCA 59.894 55.000 0.00 0.00 0.00 3.02
329 332 4.093472 TGGCATAGTAACCAAACACACT 57.907 40.909 0.00 0.00 31.46 3.55
339 342 2.276201 CCAAACACACTCGTGAAGACA 58.724 47.619 3.74 0.00 46.80 3.41
371 394 9.790389 AACATCGTTTCAAAAACAAACTATGTA 57.210 25.926 12.93 0.00 43.74 2.29
395 418 0.888619 TCTGCCAGTCCTAGTTCACG 59.111 55.000 0.00 0.00 0.00 4.35
623 666 1.053424 TCACCAGTCCAAGTACCACC 58.947 55.000 0.00 0.00 0.00 4.61
662 794 1.683011 CCATCATCACCAACCCTGACC 60.683 57.143 0.00 0.00 0.00 4.02
681 813 0.392998 CCGTGCAACTGGGATAAGCT 60.393 55.000 0.00 0.00 31.75 3.74
976 1310 4.867086 ACCAAAAACTTCTCTCTCCCAAA 58.133 39.130 0.00 0.00 0.00 3.28
985 1319 0.768221 TCTCTCCCAAACCCACAGCT 60.768 55.000 0.00 0.00 0.00 4.24
1013 1347 4.162690 GGCGATGGCGGAGGAACT 62.163 66.667 0.00 0.00 41.34 3.01
1137 1471 1.841302 TTGAGCTCCACGGCAAGGAT 61.841 55.000 12.15 0.00 33.99 3.24
1275 1609 0.181350 GCGAAGATGAACCTCCCCAT 59.819 55.000 0.00 0.00 0.00 4.00
1303 1637 1.300931 GTCCTGCAGTTCTGCGTCA 60.301 57.895 13.81 2.35 37.69 4.35
1536 1873 5.615289 ACCTGATGCACTGGATTACTATTC 58.385 41.667 15.54 0.00 40.23 1.75
1594 1932 6.206048 TGATCGACTAGTGTAGTTTCTGAACA 59.794 38.462 0.00 0.00 39.59 3.18
1604 1942 7.667219 AGTGTAGTTTCTGAACATGATCCAATT 59.333 33.333 0.00 0.00 38.26 2.32
1875 2504 9.314321 TCAGAACTTTGTTTACTAGTTTCTGAG 57.686 33.333 20.60 8.50 34.71 3.35
2028 2947 3.563808 GTGAAGCACTGGTTATGTGTTGA 59.436 43.478 0.00 0.00 37.70 3.18
2370 3295 2.998772 TCAGCATTGAAAGCGACAAAC 58.001 42.857 0.00 0.00 37.01 2.93
2377 3302 1.003972 TGAAAGCGACAAACAGAAGCG 60.004 47.619 0.00 0.00 0.00 4.68
2462 3387 5.189145 AGTTCCATACACCGGAAAAGAGTAT 59.811 40.000 9.46 3.64 44.02 2.12
2473 3398 5.479306 CGGAAAAGAGTATGACTCCTTGAA 58.521 41.667 3.00 0.00 46.18 2.69
2482 3407 6.118170 AGTATGACTCCTTGAATGATGTTGG 58.882 40.000 0.00 0.00 0.00 3.77
2758 3685 0.887387 TGCCTTCGTTTTCCTTCCGG 60.887 55.000 0.00 0.00 0.00 5.14
2818 3745 2.435372 TGCTCTTGTTGGGTTGAACT 57.565 45.000 0.00 0.00 0.00 3.01
3041 3971 4.433615 TCCATGTCTAGTTTCGATTCAGC 58.566 43.478 0.00 0.00 0.00 4.26
3221 4153 8.879759 GTTAAGAAGCATTAGCACACACTTATA 58.120 33.333 0.00 0.00 45.49 0.98
3571 4512 8.713271 GGAGTCAAGTACTAGATTCAAACAAAG 58.287 37.037 0.00 0.00 39.07 2.77
3671 4624 4.080807 TGAATCCCTAGTAATCCGCACAAA 60.081 41.667 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.638679 ATCTAGCCAGCCATGCACCA 61.639 55.000 0.00 0.00 0.00 4.17
2 3 0.466922 AATCTAGCCAGCCATGCACC 60.467 55.000 0.00 0.00 0.00 5.01
4 5 0.547553 TGAATCTAGCCAGCCATGCA 59.452 50.000 0.00 0.00 0.00 3.96
5 6 1.683943 TTGAATCTAGCCAGCCATGC 58.316 50.000 0.00 0.00 0.00 4.06
6 7 3.548770 TCTTTGAATCTAGCCAGCCATG 58.451 45.455 0.00 0.00 0.00 3.66
7 8 3.434739 CCTCTTTGAATCTAGCCAGCCAT 60.435 47.826 0.00 0.00 0.00 4.40
8 9 2.092753 CCTCTTTGAATCTAGCCAGCCA 60.093 50.000 0.00 0.00 0.00 4.75
9 10 2.092699 ACCTCTTTGAATCTAGCCAGCC 60.093 50.000 0.00 0.00 0.00 4.85
10 11 3.274095 ACCTCTTTGAATCTAGCCAGC 57.726 47.619 0.00 0.00 0.00 4.85
11 12 5.105997 CCAAAACCTCTTTGAATCTAGCCAG 60.106 44.000 0.00 0.00 0.00 4.85
12 13 4.766891 CCAAAACCTCTTTGAATCTAGCCA 59.233 41.667 0.00 0.00 0.00 4.75
13 14 4.767409 ACCAAAACCTCTTTGAATCTAGCC 59.233 41.667 0.00 0.00 0.00 3.93
14 15 5.106118 GGACCAAAACCTCTTTGAATCTAGC 60.106 44.000 0.00 0.00 0.00 3.42
15 16 6.150140 CAGGACCAAAACCTCTTTGAATCTAG 59.850 42.308 0.00 0.00 35.35 2.43
16 17 6.003950 CAGGACCAAAACCTCTTTGAATCTA 58.996 40.000 0.00 0.00 35.35 1.98
17 18 4.829492 CAGGACCAAAACCTCTTTGAATCT 59.171 41.667 0.00 0.00 35.35 2.40
18 19 4.584743 ACAGGACCAAAACCTCTTTGAATC 59.415 41.667 0.00 0.00 35.35 2.52
19 20 4.546674 ACAGGACCAAAACCTCTTTGAAT 58.453 39.130 0.00 0.00 35.35 2.57
20 21 3.976015 ACAGGACCAAAACCTCTTTGAA 58.024 40.909 0.00 0.00 35.35 2.69
21 22 3.662759 ACAGGACCAAAACCTCTTTGA 57.337 42.857 0.00 0.00 35.35 2.69
22 23 3.181476 CCAACAGGACCAAAACCTCTTTG 60.181 47.826 0.00 0.00 35.35 2.77
23 24 3.031013 CCAACAGGACCAAAACCTCTTT 58.969 45.455 0.00 0.00 35.35 2.52
24 25 2.024369 ACCAACAGGACCAAAACCTCTT 60.024 45.455 0.00 0.00 35.35 2.85
25 26 1.569072 ACCAACAGGACCAAAACCTCT 59.431 47.619 0.00 0.00 35.35 3.69
26 27 2.067365 ACCAACAGGACCAAAACCTC 57.933 50.000 0.00 0.00 35.35 3.85
27 28 2.291930 TGAACCAACAGGACCAAAACCT 60.292 45.455 0.00 0.00 38.40 3.50
28 29 2.104170 TGAACCAACAGGACCAAAACC 58.896 47.619 0.00 0.00 0.00 3.27
29 30 2.494073 TGTGAACCAACAGGACCAAAAC 59.506 45.455 0.00 0.00 0.00 2.43
30 31 2.808919 TGTGAACCAACAGGACCAAAA 58.191 42.857 0.00 0.00 0.00 2.44
31 32 2.516227 TGTGAACCAACAGGACCAAA 57.484 45.000 0.00 0.00 0.00 3.28
32 33 2.516227 TTGTGAACCAACAGGACCAA 57.484 45.000 0.00 0.00 0.00 3.67
41 42 2.422235 CCACCCTACAGTTGTGAACCAA 60.422 50.000 0.00 0.00 31.66 3.67
42 43 1.142060 CCACCCTACAGTTGTGAACCA 59.858 52.381 0.00 0.00 31.66 3.67
43 44 1.418637 TCCACCCTACAGTTGTGAACC 59.581 52.381 0.00 0.00 31.66 3.62
44 45 2.104281 ACTCCACCCTACAGTTGTGAAC 59.896 50.000 0.00 0.00 31.66 3.18
45 46 2.404559 ACTCCACCCTACAGTTGTGAA 58.595 47.619 0.00 0.00 31.66 3.18
46 47 2.097110 ACTCCACCCTACAGTTGTGA 57.903 50.000 0.00 0.00 31.66 3.58
47 48 2.494059 CAACTCCACCCTACAGTTGTG 58.506 52.381 3.37 0.00 41.38 3.33
48 49 1.202770 GCAACTCCACCCTACAGTTGT 60.203 52.381 11.56 0.00 45.91 3.32
49 50 1.523758 GCAACTCCACCCTACAGTTG 58.476 55.000 6.66 6.66 46.59 3.16
50 51 0.034896 CGCAACTCCACCCTACAGTT 59.965 55.000 0.00 0.00 0.00 3.16
51 52 1.119574 ACGCAACTCCACCCTACAGT 61.120 55.000 0.00 0.00 0.00 3.55
52 53 0.389948 GACGCAACTCCACCCTACAG 60.390 60.000 0.00 0.00 0.00 2.74
53 54 1.669440 GACGCAACTCCACCCTACA 59.331 57.895 0.00 0.00 0.00 2.74
54 55 1.079336 GGACGCAACTCCACCCTAC 60.079 63.158 0.00 0.00 0.00 3.18
55 56 0.834687 AAGGACGCAACTCCACCCTA 60.835 55.000 0.00 0.00 31.94 3.53
56 57 1.705997 AAAGGACGCAACTCCACCCT 61.706 55.000 0.00 0.00 31.94 4.34
57 58 1.228154 AAAGGACGCAACTCCACCC 60.228 57.895 0.00 0.00 31.94 4.61
58 59 1.235281 GGAAAGGACGCAACTCCACC 61.235 60.000 0.00 0.00 31.94 4.61
59 60 0.250338 AGGAAAGGACGCAACTCCAC 60.250 55.000 0.00 0.00 31.94 4.02
60 61 1.275291 CTAGGAAAGGACGCAACTCCA 59.725 52.381 0.00 0.00 31.94 3.86
61 62 1.549170 TCTAGGAAAGGACGCAACTCC 59.451 52.381 0.00 0.00 0.00 3.85
62 63 3.528597 ATCTAGGAAAGGACGCAACTC 57.471 47.619 0.00 0.00 0.00 3.01
63 64 4.024670 AGTATCTAGGAAAGGACGCAACT 58.975 43.478 0.00 0.00 0.00 3.16
64 65 4.388378 AGTATCTAGGAAAGGACGCAAC 57.612 45.455 0.00 0.00 0.00 4.17
65 66 5.419788 TGTAAGTATCTAGGAAAGGACGCAA 59.580 40.000 0.00 0.00 0.00 4.85
66 67 4.951715 TGTAAGTATCTAGGAAAGGACGCA 59.048 41.667 0.00 0.00 0.00 5.24
67 68 5.511234 TGTAAGTATCTAGGAAAGGACGC 57.489 43.478 0.00 0.00 0.00 5.19
68 69 8.162878 TGTATGTAAGTATCTAGGAAAGGACG 57.837 38.462 0.00 0.00 0.00 4.79
69 70 9.747293 GTTGTATGTAAGTATCTAGGAAAGGAC 57.253 37.037 0.00 0.00 0.00 3.85
70 71 9.483489 TGTTGTATGTAAGTATCTAGGAAAGGA 57.517 33.333 0.00 0.00 0.00 3.36
83 84 9.458374 GCAAGTTTACAATTGTTGTATGTAAGT 57.542 29.630 17.78 1.18 44.85 2.24
84 85 9.677567 AGCAAGTTTACAATTGTTGTATGTAAG 57.322 29.630 17.78 0.84 44.85 2.34
87 88 8.940768 AAAGCAAGTTTACAATTGTTGTATGT 57.059 26.923 17.78 0.00 44.85 2.29
109 110 4.911514 GTCTCTCAGGAGGCTACTAAAG 57.088 50.000 0.00 0.00 40.72 1.85
117 118 1.220477 GCCAAGTCTCTCAGGAGGC 59.780 63.158 0.00 0.00 43.94 4.70
118 119 1.904032 GGCCAAGTCTCTCAGGAGG 59.096 63.158 0.00 0.00 39.86 4.30
119 120 1.515020 CGGCCAAGTCTCTCAGGAG 59.485 63.158 2.24 0.00 40.73 3.69
120 121 1.984570 CCGGCCAAGTCTCTCAGGA 60.985 63.158 2.24 0.00 0.00 3.86
121 122 2.581354 CCGGCCAAGTCTCTCAGG 59.419 66.667 2.24 0.00 0.00 3.86
122 123 2.581354 CCCGGCCAAGTCTCTCAG 59.419 66.667 2.24 0.00 0.00 3.35
123 124 3.003173 CCCCGGCCAAGTCTCTCA 61.003 66.667 2.24 0.00 0.00 3.27
124 125 3.787001 CCCCCGGCCAAGTCTCTC 61.787 72.222 2.24 0.00 0.00 3.20
148 149 6.410540 ACAACATTGTTACATGTGGGTTTTT 58.589 32.000 9.11 0.00 38.47 1.94
149 150 5.983540 ACAACATTGTTACATGTGGGTTTT 58.016 33.333 9.11 0.00 38.47 2.43
150 151 5.606348 ACAACATTGTTACATGTGGGTTT 57.394 34.783 9.11 0.00 38.47 3.27
151 152 6.322712 AGTTACAACATTGTTACATGTGGGTT 59.677 34.615 9.11 1.07 41.64 4.11
152 153 5.830991 AGTTACAACATTGTTACATGTGGGT 59.169 36.000 9.11 5.61 41.64 4.51
153 154 6.148948 CAGTTACAACATTGTTACATGTGGG 58.851 40.000 9.11 0.00 41.64 4.61
154 155 6.148948 CCAGTTACAACATTGTTACATGTGG 58.851 40.000 9.11 10.11 41.64 4.17
155 156 6.734137 ACCAGTTACAACATTGTTACATGTG 58.266 36.000 9.11 5.91 41.64 3.21
156 157 6.952773 ACCAGTTACAACATTGTTACATGT 57.047 33.333 14.35 2.69 41.64 3.21
157 158 7.648142 AGAACCAGTTACAACATTGTTACATG 58.352 34.615 14.35 9.91 41.64 3.21
158 159 7.719633 AGAGAACCAGTTACAACATTGTTACAT 59.280 33.333 14.35 0.00 41.64 2.29
159 160 7.011950 CAGAGAACCAGTTACAACATTGTTACA 59.988 37.037 14.35 0.00 41.64 2.41
160 161 7.012044 ACAGAGAACCAGTTACAACATTGTTAC 59.988 37.037 1.98 4.22 42.35 2.50
161 162 7.011950 CACAGAGAACCAGTTACAACATTGTTA 59.988 37.037 1.98 0.00 42.35 2.41
162 163 5.885912 ACAGAGAACCAGTTACAACATTGTT 59.114 36.000 1.98 0.00 42.35 2.83
163 164 5.296780 CACAGAGAACCAGTTACAACATTGT 59.703 40.000 2.32 2.32 44.86 2.71
164 165 5.527214 TCACAGAGAACCAGTTACAACATTG 59.473 40.000 0.00 0.00 0.00 2.82
165 166 5.680619 TCACAGAGAACCAGTTACAACATT 58.319 37.500 0.00 0.00 0.00 2.71
166 167 5.163301 ACTCACAGAGAACCAGTTACAACAT 60.163 40.000 0.31 0.00 33.32 2.71
167 168 4.161565 ACTCACAGAGAACCAGTTACAACA 59.838 41.667 0.31 0.00 33.32 3.33
168 169 4.694339 ACTCACAGAGAACCAGTTACAAC 58.306 43.478 0.31 0.00 33.32 3.32
169 170 6.474140 TTACTCACAGAGAACCAGTTACAA 57.526 37.500 0.31 0.00 33.32 2.41
170 171 6.665992 ATTACTCACAGAGAACCAGTTACA 57.334 37.500 0.31 0.00 33.32 2.41
171 172 7.600065 TGTATTACTCACAGAGAACCAGTTAC 58.400 38.462 0.31 0.00 33.32 2.50
172 173 7.770366 TGTATTACTCACAGAGAACCAGTTA 57.230 36.000 0.31 0.00 33.32 2.24
173 174 6.665992 TGTATTACTCACAGAGAACCAGTT 57.334 37.500 0.31 0.00 33.32 3.16
174 175 6.665992 TTGTATTACTCACAGAGAACCAGT 57.334 37.500 0.31 0.00 33.32 4.00
175 176 7.657761 ACTTTTGTATTACTCACAGAGAACCAG 59.342 37.037 0.31 0.00 33.32 4.00
176 177 7.506114 ACTTTTGTATTACTCACAGAGAACCA 58.494 34.615 0.31 0.00 33.32 3.67
177 178 7.656137 TGACTTTTGTATTACTCACAGAGAACC 59.344 37.037 0.31 0.00 33.32 3.62
178 179 8.589335 TGACTTTTGTATTACTCACAGAGAAC 57.411 34.615 0.31 0.00 33.32 3.01
179 180 8.421784 ACTGACTTTTGTATTACTCACAGAGAA 58.578 33.333 0.31 0.00 33.32 2.87
180 181 7.867909 CACTGACTTTTGTATTACTCACAGAGA 59.132 37.037 0.31 0.00 33.32 3.10
181 182 7.116948 CCACTGACTTTTGTATTACTCACAGAG 59.883 40.741 0.00 0.00 35.52 3.35
182 183 6.929049 CCACTGACTTTTGTATTACTCACAGA 59.071 38.462 0.00 0.00 0.00 3.41
183 184 6.147821 CCCACTGACTTTTGTATTACTCACAG 59.852 42.308 0.00 0.00 0.00 3.66
184 185 5.995282 CCCACTGACTTTTGTATTACTCACA 59.005 40.000 0.00 0.00 0.00 3.58
185 186 6.228258 TCCCACTGACTTTTGTATTACTCAC 58.772 40.000 0.00 0.00 0.00 3.51
186 187 6.428083 TCCCACTGACTTTTGTATTACTCA 57.572 37.500 0.00 0.00 0.00 3.41
187 188 5.351740 GCTCCCACTGACTTTTGTATTACTC 59.648 44.000 0.00 0.00 0.00 2.59
188 189 5.246307 GCTCCCACTGACTTTTGTATTACT 58.754 41.667 0.00 0.00 0.00 2.24
189 190 4.395231 GGCTCCCACTGACTTTTGTATTAC 59.605 45.833 0.00 0.00 0.00 1.89
190 191 4.288626 AGGCTCCCACTGACTTTTGTATTA 59.711 41.667 0.00 0.00 0.00 0.98
191 192 3.074538 AGGCTCCCACTGACTTTTGTATT 59.925 43.478 0.00 0.00 0.00 1.89
192 193 2.644798 AGGCTCCCACTGACTTTTGTAT 59.355 45.455 0.00 0.00 0.00 2.29
193 194 2.038557 GAGGCTCCCACTGACTTTTGTA 59.961 50.000 2.15 0.00 0.00 2.41
194 195 0.846693 AGGCTCCCACTGACTTTTGT 59.153 50.000 0.00 0.00 0.00 2.83
195 196 1.072965 AGAGGCTCCCACTGACTTTTG 59.927 52.381 11.71 0.00 0.00 2.44
196 197 1.349357 GAGAGGCTCCCACTGACTTTT 59.651 52.381 11.71 0.00 0.00 2.27
197 198 0.980423 GAGAGGCTCCCACTGACTTT 59.020 55.000 11.71 0.00 0.00 2.66
198 199 0.907230 GGAGAGGCTCCCACTGACTT 60.907 60.000 11.71 0.00 44.36 3.01
199 200 1.305718 GGAGAGGCTCCCACTGACT 60.306 63.158 11.71 0.00 44.36 3.41
200 201 3.304251 GGAGAGGCTCCCACTGAC 58.696 66.667 11.71 0.00 44.36 3.51
208 209 1.536943 AACGACAGTGGGAGAGGCTC 61.537 60.000 6.34 6.34 0.00 4.70
209 210 1.534235 AACGACAGTGGGAGAGGCT 60.534 57.895 0.00 0.00 0.00 4.58
210 211 1.079750 GAACGACAGTGGGAGAGGC 60.080 63.158 0.00 0.00 0.00 4.70
211 212 0.038159 GTGAACGACAGTGGGAGAGG 60.038 60.000 0.00 0.00 0.00 3.69
212 213 0.038159 GGTGAACGACAGTGGGAGAG 60.038 60.000 0.00 0.00 0.00 3.20
213 214 0.469331 AGGTGAACGACAGTGGGAGA 60.469 55.000 0.00 0.00 0.00 3.71
214 215 0.393077 AAGGTGAACGACAGTGGGAG 59.607 55.000 0.00 0.00 0.00 4.30
215 216 0.391597 GAAGGTGAACGACAGTGGGA 59.608 55.000 0.00 0.00 0.00 4.37
216 217 0.105964 TGAAGGTGAACGACAGTGGG 59.894 55.000 0.00 0.00 0.00 4.61
217 218 1.948104 TTGAAGGTGAACGACAGTGG 58.052 50.000 0.00 0.00 0.00 4.00
218 219 4.349663 TTTTTGAAGGTGAACGACAGTG 57.650 40.909 0.00 0.00 0.00 3.66
329 332 4.509970 ACGATGTTTTTGATGTCTTCACGA 59.490 37.500 0.00 0.00 32.84 4.35
339 342 9.323963 GTTTGTTTTTGAAACGATGTTTTTGAT 57.676 25.926 0.00 0.00 0.00 2.57
371 394 1.577736 ACTAGGACTGGCAGAAGCAT 58.422 50.000 23.66 10.11 44.61 3.79
662 794 0.392998 AGCTTATCCCAGTTGCACGG 60.393 55.000 0.00 0.00 0.00 4.94
976 1310 4.335647 CCTTCGGCAGCTGTGGGT 62.336 66.667 16.64 0.00 0.00 4.51
1137 1471 1.029947 TGCAGACGATCTCCAGCGTA 61.030 55.000 0.00 0.00 41.34 4.42
1224 1558 2.885644 CCAACGCCGACGATCCTG 60.886 66.667 0.00 0.00 43.93 3.86
1296 1630 2.724708 GCAGAGCTCGTTGACGCAG 61.725 63.158 8.37 0.00 39.60 5.18
1303 1637 0.679505 TACACCAAGCAGAGCTCGTT 59.320 50.000 8.37 0.32 38.25 3.85
1512 1849 6.516693 CGAATAGTAATCCAGTGCATCAGGTA 60.517 42.308 0.00 0.00 0.00 3.08
1594 1932 9.905713 AGTACATAAACTACACAATTGGATCAT 57.094 29.630 10.83 0.00 0.00 2.45
2377 3302 1.202722 TCTCCAAACCGGACAACTTCC 60.203 52.381 9.46 0.00 39.64 3.46
2462 3387 4.582869 CTCCAACATCATTCAAGGAGTCA 58.417 43.478 0.00 0.00 38.23 3.41
2473 3398 0.745845 GACGCTGGCTCCAACATCAT 60.746 55.000 0.00 0.00 0.00 2.45
2482 3407 2.512515 GGTGGATGACGCTGGCTC 60.513 66.667 0.00 0.00 0.00 4.70
2758 3685 4.620982 ACAAGATAAAAGGCAAGCACAAC 58.379 39.130 0.00 0.00 0.00 3.32
2818 3745 6.801575 TGACAAGCACGACATAATCATACTA 58.198 36.000 0.00 0.00 0.00 1.82
2947 3875 6.071728 CCACAAAGTTCCATTCAGAAGCTAAT 60.072 38.462 0.00 0.00 0.00 1.73
2948 3876 5.241506 CCACAAAGTTCCATTCAGAAGCTAA 59.758 40.000 0.00 0.00 0.00 3.09
3207 4139 6.294361 AGTGACCAATATAAGTGTGTGCTA 57.706 37.500 0.00 0.00 0.00 3.49
3221 4153 6.660521 TCATTCTTAATCTGCAAGTGACCAAT 59.339 34.615 0.00 0.00 33.76 3.16


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.